1M8A	Cytokine	date	Jul 24, 2002
title	Human Mip-3alphaccl20
authors	D.M.Hoover, C.Boulegue, D.Yang, J.J.Oppenheim, K.Tucker, W.Lu, J.Lubkowski
compound		source
Molecule: Small Inducible Cytokine A20 Chain: A, B Synonym: Cc-Chemokine Larc, Mip-3-Alpha, Ccl20, Macrophage Inflammatory Protein 3 Alpha, Liver And Activation- Regulated Chemokine, Beta Chemokine Exodus-1; Engineered: Yes		Synthetic: Yes Other_details: The Protein Was Synthesized Using Machine- Assisted Stepwise Solid Phase Peptide Synthesis On An Applied Biosystems 433a Synthesizer Using A Custom- Designed Program Tailored From The Published In Situ Neutralizationhbtu Activation Protocol For Boc Chemistry (Schnolzer, M. Et Al. (1992) J.Pept.Protein Res. 40, 180- 193). It Is Naturally Found In Homo Sapiens (Human).
symmetry	Space Group: P 61	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 70.822 70.822 71.768 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.70 Å
ligand	IPA	enzyme
note	1M8A is a representative structure
related structures	by homologous chain: 1HA6
Gene Ontology	Chain Function Process Component A, B cytokine activity chemokine activity chemotaxis inflammatory response immune response signal transduction cell-cell signaling chemokinesis defense response to bacteriu... extracellular region extracellular space
Primary reference	The structure of human macrophage inflammatory protein-3alpha /CCL20. Linking antimicrobial and CC chemokine receptor-6-binding activities with human beta-defensins., Hoover DM, Boulegue C, Yang D, Oppenheim JJ, Tucker K, Lu W, Lubkowski J, J Biol Chem 2002 Oct 4;277(40):37647-54. PMID:12149255

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk] Biological Unit Coordinates (1m8a.pdb1.gz) 14 Kb Biological Unit Coordinates (1m8a.pdb2.gz) 13 Kb LPC: Ligand-Protein Contacts for 1M8A CSU: Contacts of Structural Units for 1M8A Likely Quarternary Molecular Structure file(s) for 1M8A Structure Factors (177 Kb) Retrieve 1M8A in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1M8A from S2C, [Save to disk] Re-refined 1m8a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1M8A in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1M8A

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 1M8A, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1m8aa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1m8ab_, region B [Jmol] [rasmolscript] [script source] Fold representative 1m8a from FSSP and Dali (Families of Structurally Similar Proteins) Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1m8a_A] [1m8a_B] SWISS-PROT database: [P78556] Domain organization of [CCL20_HUMAN] by SWISSPFAM Domain found in 1M8A: [SCY ] by SMART Alignments of the sequence of 1M8A with the sequences similar proteins can be viewed for 1M8A's classification [CCL20_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [CCL20_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1M8A

Community annotation for 1M8A at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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